Locus 6208

Sequence ID 3R_DroMel_CAF1
Location 16,198,515 – 16,198,635
Length 120
Max. P 0.714367
window10126

overview

Window 6

Location 16,198,515 – 16,198,635
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 89.00
Mean single sequence MFE -37.17
Consensus MFE -30.89
Energy contribution -31.45
Covariance contribution 0.56
Combinations/Pair 1.03
Mean z-score -1.60
Structure conservation index 0.83
SVM decision value 0.38
SVM RNA-class probability 0.714367
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16198515 120 - 27905053
CUAAAAAAAGGAGAGGCAAGGCGGUGCGGGGCAACCCGAAGGGGAACCACUUUCUGGCACGGUGGCUUGGUUACUGCCGGGCAAAAGUAGCUGUUGGCUGUUAGAAGCACGAAGGAAGCU
...............((...((.(((((((....)))((((((....).)))))..)))).)).(((((((....)))))))....))((((.((((((......))).)))....)))) ( -40.50)
>DroSec_CAF1 27705 119 - 1
CUAAAAAAAA-AAAGGAGGGGCGGUGCGGGGCAACCCGAAGGAGAACCACUUUCUGGCACGGUGGCUUGGUUACUGCCAGGCAAAAGUAGCUGUUGGCUGUUAGAAGCACGAAGGAAGCU
..........-.........((.(((((((....)))(((((.......)))))..)))).)).(((((((....)))))))......((((.((((((......))).)))....)))) ( -39.30)
>DroEre_CAF1 27927 113 - 1
CUAAAAAGAA-------GAGAGGAGGCGGGGCAGCCAGAAGAGAAACCACUUUCUGGCACGGUGGCUUGGUUACUGCCAGGCAAAAGUAGCUGUUGGCUGUUAGAAGCACGAAGGAAGCU
..........-------........((..(((((((((.(((((......)))))(((((....(((((((....)))))))....)).))).)))))))))....)).(....)..... ( -33.70)
>DroYak_CAF1 30127 119 - 1
CUAAAAAAAGACUAAG-AAGGCGGGGCGGGGCAACCAGAAGGGAAACCACUUUCUGGCACGGUGGCUUGGUUACUGCCAGGCAAAAGUAGCUGUUGGCUGUUAGAAGCACGAAGGAAGCU
................-..(.(((((.(((....))....((....)).).))))).)((....(((((((....)))))))....))((((.((((((......))).)))....)))) ( -35.20)
>consensus
CUAAAAAAAA_A_AGG_AAGGCGGGGCGGGGCAACCAGAAGGGAAACCACUUUCUGGCACGGUGGCUUGGUUACUGCCAGGCAAAAGUAGCUGUUGGCUGUUAGAAGCACGAAGGAAGCU
..........................((((....))))..((....)).(((((((((((....(((((((....)))))))....)).))).((((((......))).))))))))).. (-30.89 = -31.45 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:36 2006